Lengthscales and cooperativity in DNA bubble formation
Year: 2006
Authors: Rapti Z., Smerzi A., Rasmussen K.O., Bishop A.R., Choi CH., Usheva A.
Autors Affiliation: Los Alamos Natl Lab, Ctr Nonlinear Studies, Los Alamos, NM 87545 USA; Inst Adv Study, Sch Math, Princeton, NJ 08540 USA; Los Alamos Natl Lab, Theoret Div, Los Alamos, NM 87545 USA; Los Alamos Natl Lab, Ctr Nonlinear Studies, Los Alamos, NM 87545 USA; Univ Trent, Ist Nazl Fis Mat, BEC, CRS, I-38050 Trento, Italy; Beth Israel Deaconess Med Ctr, Boston, MA 02215 USA; Harvard Univ, Sch Med, Boston, MA 02215 USA.
Abstract: It appears that thermally activated DNA bubbles of different sizes play central roles in important genetic processes. Here we show that the probability for the formation of such bubbles is regulated by the number of adenine-thymine pairs in specific regions with lengths which at physiological temperatures are of the order of (but not equal to) the size of the bubble. Our analysis is based on the Peyrard-Bishop-Dauxois model, whose equilibrium statistical properties have been accurately calculated here with a transfer integral approach.
Journal/Review: EUROPHYSICS LETTERS
Volume: 74 (3) Pages from: 540 to: 546
KeyWords: Peyrard-bishop Model; Statistical-mechanics; Transcription; Denaturation; Transition; InitiationDOI: 10.1209/epl/i2005-10543-xCitations: 28data from “WEB OF SCIENCE” (of Thomson Reuters) are update at: 2024-10-20References taken from IsiWeb of Knowledge: (subscribers only)